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ARGs-OAP v3.0——抗生素耐药基因数据库的筛选和分析流程优化 Article
Xiaole Yin, Xiawan Zheng, Liguan Li, An-Ni Zhang, Xiao-Tao Jiang, Tong Zhang
《工程(英文)》 2023年 第27卷 第8期 页码 234-241 doi: 10.1016/j.eng.2022.10.011
Antibiotic resistance, which is encoded by antibiotic-resistance genes (ARGs), has proliferated to become a growing threat to public health around the world. With technical advances, especially in the popularization of metagenomic sequencing, scientists have gained the ability to decipher the profiles of ARGs in diverse samples with high accuracy at an accelerated speed. To analyze thousands of ARGs in a highthroughput way, standardized and integrated pipelines are needed. The new version (v3.0) of the widely used ARGs online analysis pipeline (ARGs-OAP) has made significant improvements to both the reference database—the structured ARGs (SARG) database—and the integrated analysis pipeline. SARG has been enhanced with sequence curation to improve annotation reliability, incorporate emerging resistance genotypes, and determine rigorous mechanism classification. The database has been further organized and visualized online in the format of a tree-like structure with a dictionary. It has also been divided into sub-databases for different application scenarios. In addition, the ARGs-OAP has been improved with adjusted quantification methods, simplified tool implementation, and multiple functions with userdefined reference databases. Moreover, the online platform now provides a diverse biostatistical analysis workflow with visualization packages for the efficient interpretation of ARG profiles. The ARGs-OAP v3.0 with an improved database and analysis pipeline will benefit academia, governmental management, and consultation regarding risk assessment of the environmental prevalence of ARGs.
关键词: SARG database ARGs-OAP Antibiotic-resistance genes Environmental metagenome Quantification
Dawen Gao, Xiaolong Wang, Hong Liang, Qihang Wei, Yuan Dou, Longwei Li
《环境科学与工程前沿(英文)》 2018年 第12卷 第3期 doi: 10.1007/s11783-018-1035-x
关键词: Anammox Metabolism Metagenome Ecological distribution Microbial interactions
LI Wei,HU Mengze
《环境科学与工程前沿(英文)》 2014年 第8卷 第3期 页码 316-328 doi: 10.1007/s11783-014-0625-5
关键词: environmental finance policy integrated mechanism phased evolution implementation progress financial institution environmental management
Trends of environmental accidents and impact factors in China
Pengli XUE, Weihua ZENG
《环境科学与工程前沿(英文)》 2011年 第5卷 第2期 页码 266-276 doi: 10.1007/s11783-010-0267-1
关键词: environmental accidents spatial and temporal trends environmental risk
DONG Hongwei
《环境科学与工程前沿(英文)》 2007年 第1卷 第4期 页码 434-442 doi: 10.1007/s11783-007-0069-2
关键词: law-abiding punishment environmental protection law-breaking enterprise
Chaoyang FU,Wangfeng LI
《环境科学与工程前沿(英文)》 2015年 第9卷 第2期 页码 310-316 doi: 10.1007/s11783-014-0658-9
关键词: environmental policy distributed environment policy distributed parameter model lumped parameter model
Reducing environmental impacts through socioeconomic transitions: critical review and prospects
《环境科学与工程前沿(英文)》 2023年 第17卷 第2期 doi: 10.1007/s11783-023-1624-1
● Reducing environmental impacts through socioeconomic structural transitions.
关键词: Environmental pressures Environmental impacts Nexus Supply chains Trade Coupled systems
Hydrogel photocatalysts for efficient energy conversion and environmental treatment
《能源前沿(英文)》 2021年 第15卷 第3期 页码 577-595 doi: 10.1007/s11708-021-0756-x
关键词: hydrogel photocatalysts energy conversion environmental treatment
NewIndustrial Revolution and Environmental Protection
Qian Yi
《工程管理前沿(英文)》 2014年 第1卷 第1期 页码 71-75 doi: 10.15302/J-FEM-2014011
关键词: industrial ecology new industrial revolution environmental protection cleaner production circular economy
Addressing the environmental risk of persistent organic pollutants in China
Bin WANG, Jun HUANG, Shubo DENG, Xiaoling YANG, Gang YU
《环境科学与工程前沿(英文)》 2012年 第6卷 第1期 页码 2-16 doi: 10.1007/s11783-011-0370-y
关键词: persistent organic pollutant (POPs) environmental risk assessment inventory environmental monitoring fugacity model emerging POPs
Insight of chemical environmental risk and its management from the vinyl chloride accident
《环境科学与工程前沿(英文)》 2023年 第17卷 第4期 doi: 10.1007/s11783-023-1652-x
关键词: Vinyl chloride Combustion Chemical safety management Environmental risk Emerging contaminants
Appreciating the role of big data in the modernization of environmental governance
《工程管理前沿(英文)》 2022年 第9卷 第1期 页码 163-169 doi: 10.1007/s42524-021-0185-x
NEW ZEALAND DAIRY FARM SYSTEMS AND KEY ENVIRONMENTAL EFFECTS
《农业科学与工程前沿(英文)》 2021年 第8卷 第1期
• NZ dairy farming systems are based on year-round grazing of perennial pasture (ryegrass/white clover).
• Milk production per hectare has increased by about 29% with increased use of externally-sourced feeds over the last two decades.
• Externally-sourced feeds with a low protein concentration can potentially reduce N2O emissions and N leaching per unit of production.
• Systems analysis is important for evaluating mitigations to minimize trade-offs between environmental impacts.
This paper provides an overview of the range of dairy pasture grazing systems used in New Zealand (NZ), the changes with increased inputs over time and associated key environmental effects including nitrogen (N) leaching and greenhouse gas (GHG) emissions. NZ dairy farming systems are based on year-round grazing and seasonal milk production on perennial ryegrass/clover pasture where cows are rotationally grazed in paddocks. There was an increase in stocking rate on NZ dairy farms from 2.62 cows ha−1 in 2000/2001 to 2.84 cows ha−1 in 2015/2016. During the same period annual milk solids production increased from 315 to 378 kg·yr−1 per cow. This performance has coincided with an increase in N fertilizer use (by ~ 30%) and a twofold increase in externally-sourced feeds. Externally-sourced feeds with a low protein concentration (e.g., maize silage) can increase the efficiency of N utilization and potentially reduce N losses per unit of production. Off-paddock facilities (such as standoff or feed pads) are often used to restrict grazing during very wet winter conditions. A systems analysis of contrasting dairy farms in Waikato (largest NZ dairying region) indicates that the increased input would result in an increase in per-cow milk production but little change in efficiency of milk production from a total land use perspective. This analysis also shows that the increased inputs caused an 11% decrease in N footprint (i.e., N emissions per unit of milk production) and a 2% increase in C footprint (i.e., greenhouse gas (GHG) emissions per unit of milk production).jiafa.luo@agresearch.co.nz
Application of proteomics in environmental science
Xiaona CHU, Jiangyong HU, Say Leong ONG,
《环境科学与工程前沿(英文)》 2009年 第3卷 第4期 页码 393-403 doi: 10.1007/s11783-009-0145-x
关键词: proteomics environmental stress two dimensional (2D) gel electrophoresis mass spectrometry
NEW ZEALAND DAIRY FARM SYSTEMS AND KEY ENVIRONMENTAL EFFECTS
Jiafa LUO, Stewart LEDGARD
《农业科学与工程前沿(英文)》 2021年 第8卷 第1期 页码 148-158 doi: 10.15302/J-FASE-2020372
关键词: dairy farms environmental impacts grazing systems intensification mitigation
标题 作者 时间 类型 操作
ARGs-OAP v3.0——抗生素耐药基因数据库的筛选和分析流程优化
Xiaole Yin, Xiawan Zheng, Liguan Li, An-Ni Zhang, Xiao-Tao Jiang, Tong Zhang
期刊论文
Anaerobic ammonia oxidizing bacteria: ecological distribution, metabolism, and microbial interactions
Dawen Gao, Xiaolong Wang, Hong Liang, Qihang Wei, Yuan Dou, Longwei Li
期刊论文
An overview of the environmental finance policies in China: retrofitting an integrated mechanism forenvironmental management
LI Wei,HU Mengze
期刊论文
Why does environmental compliance cost more than penalty?—A legal analysis on environmental acts of enterprises in China
DONG Hongwei
期刊论文
Analysis of the current situation of environmental policy of China and establishment of distributed environmental
Chaoyang FU,Wangfeng LI
期刊论文
Reducing environmental impacts through socioeconomic transitions: critical review and prospects
期刊论文
Addressing the environmental risk of persistent organic pollutants in China
Bin WANG, Jun HUANG, Shubo DENG, Xiaoling YANG, Gang YU
期刊论文